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Table 3 An example of UTRminer FP views.

From: Computational annotation of UTR cis-regulatory modules through Frequent Pattern Mining

mt-3' UTR Total Patterns

mt-3' UTR Human Patterns

Pattern level: 3

INIT: 127 | IRES, PAS, uORF

Support items: 320

Chi-square: 9.88 | Significant (alpha = 0.05)

INIT: 88 | IRES, PAS, uORF-

Support items: 111

Chi-square: 6.622 | Significant (alpha = 0.05)

Positional patterns: compact view

   * IRES uORF PAS (6)

   * IRES uORF PAS (1)

   * uORF IRES PAS (296)

   * uORF IRES PAS (107)

   * uORF IRES uORF PAS (18)

   * uORF IRES uORF PAS (3)

Positional pattern: normal view

   *IRES uORF PAS (6)

   * IRES uORF PAS (1)

   * uORF IRES PAS (93)

   * uORF IRES PAS (24)

   * uORF IRES uORF PAS (6)

   * uORF IRES uORF PAS (1)

   * uORF[2] IRES PAS (47)

   * uORF[2] IRES PAS (12)

   * uORF[2] IRES uORF PAS (3)

   * uORF[3] IRES PAS (10)

   * uORF[3] IRES PAS (34)

   * uORF[4] IRES PAS (8)

   * uORF[3] IRES uORF PAS (3)

   * uORF[5] IRES PAS (5)

   *.......................

   *......................

Positional pattern: full view

   * uORF (207:33..239) 11 | IRES (96:249..344) -20 | PAS (22:323..344) [CR655030]

   * uORF (132:9..140) -9 | IRES (96:130..225) -33 | PAS (35:191..225) [CR042183]

   *.............................................

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  1. The table shows the three views of UTRminer on results of the first step. Data refer to the specific example {PAS, IRES, uORF} in the M_dataset (mt-3' UTR Total Patterns) and in the H_dataset (mt-3' UTR Human Patterns). In the normal and full view, only few rows of the overall results are shown. Support items = number of UTR sequences bringing the RNA target sites.